bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2024,
Volume and Issue:
unknown
Published: Nov. 3, 2024
ABSTRACT
In
prokaryotes
lateral
gene
transfer
(LGT)
is
a
key
mechanism
leading
to
intra-species
variability
in
content
and
the
phenomenon
of
pangenomes.
microbial
eukaryotes,
however,
extent
which
LGT-driven
pangenomes
exist
unclear.
Pelagophytes
are
ecologically
important
marine
algae
that
include
Aureococcus
anophagefferens
–
species
notorious
for
causing
harmful
algal
blooms.
To
investigate
genome
evolution
across
Pelagophyceae
within
,
we
used
long-read
sequencing
produce
high-quality
assemblies
five
strains
Ac.
(52-54
megabase-pairs;
Mbp),
telomere-to-telomere
assembly
Pelagomonas
calceolata
(32
first
reference
Aureoumbra
lagunensis
(41
Mbp).
Using
comparative
genomics
phylogenetics,
show
remarkable
strain
level
genetic
variation
with
pangenome
(23,356
orthogroups)
81.1%
core
18.9%
accessory.
Although
does
not
appear
be
largely
driven
by
recent
prokaryotic
LGTs
(2.6%
accessory
orthogroups),
368
orthogroups
were
acquired
from
bacteria
common
ancestor
all
analyzed
found
P.
or
Au.
.
1,077
viruses
identified
overall,
constituting
3.5-4.0%
each
species.
This
includes
genes
likely
contributing
ecological
success
pelagophytes
globally
long-lasting
Plants,
Journal Year:
2023,
Volume and Issue:
12(23), P. 3936 - 3936
Published: Nov. 22, 2023
Extensive
growth
of
microscopic
algae
and
cyanobacteria
results
in
harmful
algal
blooms
(HABs)
marine,
brackish,
freshwater
environments.
HABs
can
harm
humans
animals
through
their
toxicity
or
by
producing
ecological
conditions
such
as
oxygen
depletion,
which
kill
fish
other
economically
ecologically
important
organisms.
This
review
summarizes
the
reports
on
various
that
are
able
to
bring
about
marine
kills.
The
predominant
HABs,
toxins,
effects
fishes
spread
across
parts
globe
discussed.
mechanism
HAB-driven
kills
is
discussed
based
available
reports,
existing
mitigation
methods
presented.
Lapses
large-scale
implementation
demonstrated
under
laboratory
projected.
Clay-related
technologies
nano-sorption-based
nanotechnologies,
although
proven
make
significant
contributions,
have
not
been
put
use
real-world
conditions.
gaps
technology
transfer
accomplished
prototypes
highlighted.
Further
uses
remote
sensing
machine
learning
state-of-the-art
techniques
for
detection
identification
recommended.
Science,
Journal Year:
2024,
Volume and Issue:
385(6709), P. 671 - 678
Published: Aug. 8, 2024
Prymnesium
parvum
are
harmful
haptophyte
algae
that
cause
massive
environmental
fish
kills.
Their
polyketide
polyether
toxins,
the
prymnesins,
among
largest
nonpolymeric
compounds
in
nature
and
have
biosynthetic
origins
remained
enigmatic
for
more
than
40
years.
In
this
work,
we
report
“PKZILLAs,”
P.
synthase
(PKS)
genes
evaded
previous
detection.
PKZILLA-1
-2
encode
giant
protein
products
of
4.7
3.2
megadaltons
140
99
enzyme
domains.
predicted
polyene
product
matches
proposed
pre-prymnesin
precursor
90-carbon–backbone
A-type
prymnesins.
We
further
characterize
variant
PKZILLA-B1,
which
is
responsible
shorter
B-type
analog
prymnesin-B1,
from
RCC3426
thus
establish
a
general
model
logic.
This
work
expands
expectations
genetic
enzymatic
size
limits
biology.
Water,
Journal Year:
2023,
Volume and Issue:
15(15), P. 2808 - 2808
Published: Aug. 3, 2023
Cyanobacteria
are
the
most
common
toxigenic
algae
in
inland
waters.
Their
toxins
can
affect
health
of
aquatic
and
terrestrial
organisms,
including
humans.
Other
algal
groups,
such
as
haptophytes
(e.g.,
Prymnesium
parvum)
euglenoids
Euglena
sanguinea),
also
form
harmful
blooms
(HABs)
whose
cause
injury
to
biota
but
currently
have
no
known
effects
on
human
health.
parvum,
however,
is
responsible
for
some
worst
HAB-related
ecological
disasters
recorded
Here,
we
provide
an
overview
primary
found
U.S.
waters:
cyanobacteria
(planktonic
forms),
P.
E.
sanguinea
with
objective
describing
their
similarities
differences
areas
HAB
ecology,
toxins,
potential
future
range
expansion
HABs.
A
detailed
account
bloom
habitats
associations
land
cover
use
provided
from
perspective
water
quality.
This
review
revealed
that
salinity
may
influence
cyanobacterial
cyanotoxins
had
not
been
fully
recognized
previously.
Harmful Algae,
Journal Year:
2024,
Volume and Issue:
136, P. 102644 - 102644
Published: May 17, 2024
Blooms
of
Prymnesium
parvum,
a
unicellular
alga
globally
distributed
in
marine
and
brackish
environments,
frequently
result
massive
fish
kills
due
to
the
production
toxins
called
prymnesins
by
this
haptophyte.
In
August
2022,
harmful
algal
bloom
(HAB)
species
occurred
lower
Oder
River
(Poland
Germany),
which
caused
mass
mortalities
other
organisms.
This
HAB
was
linked
low
discharge
mining
activities
that
significant
increase
salinity.
context,
we
report
on
molecular
detection
screening
haptophyte
its
environmental
samples
clonal
cultures
derived
thereof.
Both
conventional
PCR
droplet
digital
assays
reliably
detected
P.
parvum
samples.
eDNA
metabarcoding
using
V4
region
18S
rRNA
gene
revealed
single
sequence
variant,
but
failed
identify
it
level.
Four
established
from
were
unambiguously
identified
as
phylogenetics
(near
full-length
gene)
light
microscopy.
Phylogenetic
analysis
(ITS1-5.8S-ITS2
marker
region)
placed
cultured
phylotype
within
clade
containing
strains
known
produce
B-type
prymnesins.
Toxin-screening
liquid
chromatography-electrospray
ionization
-
time
flight
spectrometry
prymnesins,
also
extracts
filter
residues
water
collected
during
HAB.
Overall,
our
investigation
provides
detailed
characterization
including
their
River,
contributing
valuable
insights
into
ecological
disaster.
addition,
assay
here
will
be
useful
for
future
monitoring
levels
or
any
salt-impacted
bodies.
bioRxiv (Cold Spring Harbor Laboratory),
Journal Year:
2024,
Volume and Issue:
unknown
Published: Jan. 31, 2024
Prymnesium
parvum
are
harmful
haptophyte
algae
that
cause
massive
environmental
fish-kills.
Their
polyketide
polyether
toxins,
the
prymnesins,
amongst
largest
nonpolymeric
compounds
in
nature,
alongside
structurally-related
health-impacting
"red-tide"
toxins
whose
biosynthetic
origins
have
been
an
enigma
for
over
40
years.
Here
we
report
'PKZILLAs',
P.
synthase
(PKS)
genes,
existence
and
challenging
genomic
structure
evaded
prior
detection.
PKZILLA-1
-2
encode
giant
protein
products
of
4.7
3.2
MDa
with
140
99
enzyme
domains,
exceeding
known
titin
all
other
PKS
systems.
predicted
polyene
product
matches
proposed
pre-prymnesin
precursor
90-carbon-backbone
A-type
prymnesins.
This
discovery
establishes
a
model
system
microalgal
biosynthesis
expands
expectations
genetic
enzymatic
size
limits
biology.
The Science of The Total Environment,
Journal Year:
2023,
Volume and Issue:
908, P. 168042 - 168042
Published: Oct. 26, 2023
Prymnesium
parvum
is
a
toxin-producing
haptophyte
that
causes
harmful
algal
blooms
worldwide,
which
are
often
associated
with
massive
fish-kills
and
subsequent
economic
losses.
In
here,
we
present
nuclear
plastid
genome
assemblies
using
PacBio
HiFi
long
reads
DNBseq
short
for
the
two
P.
strains
UTEX
2797
CCMP
3037,
representing
producers
of
type
A
prymnesins.
Our
results
show
have
moderate
size
97.56
107.32
Mb.
The
one
highest
contiguous
assembled
contig
sequences
to
date
consisting
463
362
contigs
N50
596.99
kb
968.39
strain
respectively.
3037
were
anchored
34
scaffolds,
scaffold
5.35
Mb
3.61
Mb,
respectively,
accounting
93.2
%
97.9
total
length.
Each
comprises
circular
contig.
20,578
19,426
protein-coding
genes
annotated
3037.
expanded
gene
family
analysis
showed
starch
sucrose
metabolism,
sulfur
energy
metabolism
ABC
transporters
involved
in
evolution
parvum.
Polyketide
synthase
(PKSs)
responsible
production
secondary
metabolites
such
as
prymnesins
displayed
different
expression
patterns
under
nutrient
limitation.
Repeat
horizontal
transfer
may
be
contributing
factors
high
number
PKS
found
this
species.
quality
genomes
will
serve
valuable
resources
ecological,
genetic,
toxicological
studies
haptophytes
can
used
monitor
potentially
manage
ichthyotoxic
future.
Current Biology,
Journal Year:
2024,
Volume and Issue:
34(16), P. 3698 - 3706.e4
Published: July 9, 2024
The
catastrophic
loss
of
aquatic
life
in
the
Central
European
Oder
River
2022,
caused
by
a
toxic
bloom
haptophyte
microalga
Prymnesium
parvum
(in
wide
sense,
s.l.),
underscores
need
to
improve
our
understanding
genomic
basis
toxin.
Previous
morphological,
phylogenetic,
and
studies
have
revealed
cryptic
diversity
within
P.
s.l.
uncovered
three
clade-specific
(types
A,
B,
C)
prymnesin
toxins.
Here,
we
used
state-of-the-art
long-read
sequencing
assembled
first
haplotype-resolved
diploid
genome
type
B
from
strain
responsible
for
disaster.
Comparative
analyses
with
A
genomes
genome-size
expansion
driven
repetitive
elements
B.
We
also
found
conserved
synteny
but
divergent
evolution
several
polyketide
synthase
(PKS)
genes,
which
are
known
underlie
toxin
production
combination
environmental
cues.
identified
an
approximately
20-kbp
deletion
largest
PKS
gene
that
link
differences
chemical
structure
types
prymnesins.
Flow
cytometry
electron
microscopy
confirmed
diploidy
closely
related
strains
both
ploidy
morphology.
Our
results
provide
unprecedented
resolution
better
variability
haptophytes.
reference-quality
will
enable
us
understand
changes
microbial
face
increasing
pressures
provides
strain-level
monitoring
invasive
future.
To
thrive
on
melting
alpine
and
polar
snow,
some
Chlorophytes
produce
an
abundance
of
astaxanthin,
causing
red
blooms,
often
dominated
by
genus
Sanguina.
The
cells
have
not
been
cultured,
but
we
recently
grew
a
green
biciliate
conspecific
with
Sanguina
aurantia
from
sample
watermelon
snow.
This
culture
provided
source
material
for
Oxford
Nanopore
Technology
Illumina
sequencing.
Our
assembly
pipeline
exemplifies
the
value
hybrid
long-
short-read
approach
complexities
working
grown
field
sample.
Using
bioinformatic
tools,
separated
assembled
contigs
into
2
genomic
pools
based
difference
in
GC
content
(57.5
55.1%).
We
present
data
as
assemblies
S.
variants
explore
other
possibilities.
High-throughput
chromatin
conformation
capture
analysis
(Hi-C
sequencing)
was
used
to
scaffold
96-Mb
genome
designated
"A"
102-Mb
"B."
Both
are
highly
contiguous:
A
consists
38
scaffolds
N50
5.4
Mb,
while
B
has
50
6.4
Mb.
RNA
sequencing
improve
gene
annotation.